TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3575c/-:

update plot	correlation	link to info on gene
Rv2851c/-	(cc=0.5889)	info on Rv2851c/-
Rv2852c/mqo	(cc=0.4928)	info on Rv2852c/mqo
Rv0826/-	(cc=0.4461)	info on Rv0826/-
Rv3135/PPE50	(cc=0.4348)	info on Rv3135/PPE50
Rv3570c/hsaA	(cc=0.432)	info on Rv3570c/hsaA
Rv3272/-	(cc=0.4199)	info on Rv3272/-
Rv0624/vapC30	(cc=0.4181)	info on Rv0624/vapC30
Rv3549c/-	(cc=0.4108)	info on Rv3549c/-
Rv3687c/rsfB	(cc=0.4065)	info on Rv3687c/rsfB
Rv0491/regX3	(cc=0.4045)	info on Rv0491/regX3

Correlation of Rv3575c/- with Rv2851c/-

Normalized LFCs for Rv3575c/-:
(description and provenance of datasets)

	Rv3575c/-	Rv2851c/-
Fe_supp_jason_reseq	0.079	-0.021
low_pH_jason_reseq	-1.128	-0.852
NO_jason_reseq	0.331	2.539
B6_jason_reseq	0.737	0.843
MHCII_jason_reseq	-0.495	1.51
Isoniazid02	-0.256	0.781
Rifampicin4	-1.053	-0.319
Ethambutol3	0.223	0.14
Meropenem3	0.199	0.478
Vancomycin16	-1.207	-0.653
Rv2680_day32	1.286	1.779
H37Rv_KO_MarP	0.638	0.562
hypoxia_3wks	1.695	0.809
hypoxia_6wks	0.902	0.472
glycerol	-0.657	0.884
cholesterol	-2.09	-1.323
AJ	-0.363	-0.484
Bibs02	-0.554	0.0
Bibs02c	-0.209	-0.217
BL6	-0.204	0.463
BL6a	-1.155	0.08
BXD01	0.688	0.373
BXD010	-0.331	0.052
BXD011	0.305	0.149
BXD03	-0.247	-0.99
BXD04	0.806	0.744
BXD05	0.008	0.514
BXD06	-0.326	-0.091
BXD07	0.068	-0.131
BXD08	1.018	0.589
BXD09	0.484	1.403
CAST	-2.167	-1.333
CCcont	-1.041	0.612
DS01	-0.447	-0.517
DS02	1.345	1.549
DS04	-0.278	-0.632
DS0c	-0.5	0.635
GP01	-0.123	2.288
GP02	-0.227	0.201
GP0c	-0.059	1.225
NOD	-1.516	-0.835
NZO	1.706	0.533
PWK	-1.388	-0.776
H37Rv_KO_CtpC	-0.528	0.248
H37Rv_KO_CtpD	-0.679	0.484
H37Rv_KO_Rv1272	-0.406	0.609
H37Rv_KO_SugABC	0.1	2.202
H37Rv_KO_MbtN	-0.434	1.314
Trans05	0.979	1.236
macrophage_unactivated	-0.593	0.956
IL1	1.652	1.777
Rapamycin	0.758	2.55
Tcell	0.964	1.033
GMCSF	0.269	1.067
IFNab	-0.568	0.051
IFNg	3.017	3.814
IFNg_GMCSF1	2.533	4.286
Rv1432_day32	2.677	1.601
Rv1565c_day32	-1.579	-0.31
secA2_input	0.171	-0.56
delta_Rv3594	0.526	0.716
delta_Rv3717	1.122	0.405
delta_Rv3811	0.772	0.882
delta_Rv0954	0.328	0.031
PonA1	-1.287	-1.27
EccD1_KO	-0.036	0.789
EspI_KO	0.063	0.819
PE35_KO	0.064	0.289
PPE68_KO	0.07	0.451
glycerol2	1.152	3.544
lignocerate	0.04	3.187
oleate	0.047	-1.418
phosphatidylcholine	0.657	3.27
acetate	-0.672	2.809
glucAc	-0.536	2.649
Rv0950ko	0.691	0.585
Rv1096ko	1.445	0.558
Rv3684ko	1.67	1.041
delta_otsA_trehalose	1.192	2.311